Basic Information
VIS ID
TVIS30002129
Fusion event
HIV-KNTC1 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr12
Cytoband
q24.31
Reference genome
GRCh37/hg19
Start
123034902/122550355 (Hg38)
End
123034902/122550355 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
KNTC1
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-484 ; hsa-mir-149-5p ; hsa-mir-183-5p ; hsa-mir-5584-3p ; hsa-mir-6875-3p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-632 ; hsa-mir-4288 ; hsa-mir-527 ; hsa-mir-518a-5p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-6886-3p ; hsa-mir-4778-3p ; hsa-mir-6832-3p ; hsa-mir-5088-3p ; hsa-mir-129-2-3p ; hsa-mir-129-1-3p ; hsa-mir-3145-5p ; hsa-mir-4771 ; hsa-mir-519d-5p ; hsa-mir-5583-3p ; hsa-mir-633 ; hsa-mir-885-5p
Nearest miRNA
hsa-let-7i/Upstream/1106003; hsa-mir-3612/Downstream/145552;
Nearest TSS
ENST00000382841/Upstream/23107; ENST00000423927/Downstream/42463;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/23137, chr12-CpG: 68/Downstream/202092
Upstream sequence
cattttggaaattacttgtagacatcatgctgtcacgcctaaatcttcagcaggtatctcctaaaaataagggcattcttctacaatgcaattatcatac
Downstream sequence
tcagaaaatgtaactcaaatacagtattatttattataaactcttctagatttaaattttaccaattgggccaattactttaaagctatttttttttctt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate